createMgsaGoSets

a character vector of GO ids (GO:00001234)

go.ids

a vector of identifiers that are annotated
  to the term in the corresponding position of the go.ids
  vector.

items


  This functions takes a 1:1 mapping of go.ids to items and
  returns a full MgsaGOSets instance. The structure of GO
  is gathered from GO.db. It is sufficient to specify just
  the directly asserted mapping (or annotation), i.e., the
  most specific ones. The true path rule is taken account,
  that is, if an item is annotated to a term then it will
  be also annotated to more general terms (some people
  prefer to say that just the transitive closure is
  calculated).


Model-based Gene Set Analysis (MGSA) is a Bayesian
modeling approach for gene set enrichment. The package mgsa
implements MGSA and tools to use MGSA together with the Gene
Ontology.

Sebastian Bauer

mgsa

Model-based gene set analysis

createMgsaGoSets function

This functions takes a 1:1 mapping of go.ids to items and returns
a full MgsaGOSets instance. The structure of GO is gathered from GO.db. It
is sufficient to specify just the directly asserted mapping (or annotation),
i.e., the most specific ones. The true path rule is taken account, that is, if an
item is annotated to a term then it will be also annotated to more general
terms (some people prefer to say that just the transitive closure is calculated).

Description

Usage

Arguments